Sodium in the structure of Crystal Structure of Maltohexaose-Producing Amylase Complexed With Pseudo-Maltononaose (pdb 1wpc)

The binding sites of Sodium atom in the structure of Crystal Structure of Maltohexaose-Producing Amylase Complexed With Pseudo-Maltononaose (pdb code 1wpc). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1wpc structure was solved by R.KANAI, K.HAGA, T.AKIBA, K.YAMANE, K.HARATA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 6.0-1.9 Space group P212121 a (A) 47.410 b (A) 82.490 c (A) 126.880 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 17.2 Rfree (%) 20.7 Sodium Binding Sites: Sodium binding site 1 out of 1 in 1wpc Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1wpc. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Asp163, A: Trp187, A: Asp188, A: Asp199, A: Asp205, A: Ile206, A: Asp207, A: Met208, A: Ca501, A: Ca502, A: Hoh719, A: Hoh720, conact list: Atom Atom Distance (A) Na N A:Asp163 4.89 Na CB A:Asp163 3.61 Na OD2 A:Asp163 2.30 Na OD1 A:Asp163 4.38 Na CG A:Asp163 3.27 Na CA A:Asp163 4.87 Na CE3 A:Trp187 4.94 Na N A:Asp188 4.33 Na CB A:Asp188 4.09 Na OD2 A:Asp188 2.45 Na OD1 A:Asp188 3.78 Na CG A:Asp188 3.19 Na CA A:Asp188 4.86 Na CB A:Asp199 4.51 Na OD2 A:Asp199 2.43 Na OD1 A:Asp199 2.93 Na CG A:Asp199 3.03 Na O A:Asp205 4.51 Na CB A:Asp205 4.60 Na OD2 A:Asp205 2.41 Na C A:Asp205 4.60 Na OD1 A:Asp205 4.26 Na CG A:Asp205 3.58 Na O A:Ile206 2.57 Na N A:Ile206 4.69 Na C A:Ile206 3.57 Na CA A:Ile206 4.74 Na N A:Asp207 4.11 Na CB A:Asp207 4.84 Na C A:Asp207 4.64 Na OD1 A:Asp207 4.82 Na CA A:Asp207 3.84 Na N A:Met208 4.28 Na CA A:Ca501 4.46 Na CA A:Ca502 4.03 Na O A:Hoh719 3.63 Na O A:Hoh720 3.73 interactive model: